Citrus Sinensis ID: 014311

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------
MHTHRLSTPNHNLHQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL
cccccccccccccccccccccEEEcccccccccccccccccccHHHHccHHHccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccEEEEEccEEEEEccccccccccHHHHHHHHHcccccccEEEEEcccccccccccHHHHHHHHccccEEEEEccccccccccHHHHHHHHcccEEEEccHHHHHHHHHHHHHHHHHccccEEEEEHHcccccccccccccccccccHHHHHHHHHccEEEEccccEEEcccccccccccccccEEEEEccccccccccccccccccEEEEEEcccccccccccccccEEEEcccccHHHHHHHHHHccccEEEEccccccccHHHHHHHHHHcccccEEEEEEccccccccccccccccccHHcccccccccEEEEcccEEEEEEc
ccccccccccccHHHccccccEEEcccccccEEEcccccccHHHHHHHHHHHHccccHHcccEEEEEEEcccccHHHHHHHHHHHHHHHHccccccccccEEEEEEEccEEEEccccccccccHHHHHHHHHHcccccccEEEEEEccccccccccHHHHHHHHccccEEEEEEccccccHccHHHHHHHHcccEEEEccHHHHHHHHHHHHHHHHHccccEEEEEEEEEccccEEEccccccEcccHHHHHHHHHHcEEEEccccHccccccccEcccccccEEEEEEcccccccccEEEEcccccEEEEEEcccHHHHHHHHHcccEEEEcccccHHHHHHHHHHccccEEEEEccHcHHHHHHHHHHHHHcccHcEEEEEEcHHHccccccccccccccHHHHHccccEEEEEccccEEEEEEc
mhthrlstpnhnlhqlglspcrifyptssptlafnqnstfgfCNSLKRLAKSLTstrkcrggyrircgqvqnndkddgfyMRRCVELATkavgstspnpmvgcvivkdgkivgegfhpkagqphAEVFALRDagelaegatayvslepcnhygrtppctEALIKAKVKKVVVGmldpnpivnskglerlrdagidvTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLgegvaesggYYSQLLQEYDAIILSAsstkkysipasqepdanqpfriitvsnhaspiripglseessskvivftdgeitvepdmgtkgietVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLpvwngsdggnphTLLNSLGKRLIlknlqpkmssqsivlegyl
mhthrlstpnhnlhqlgLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLtstrkcrggyrircgqvqnndkddgfYMRRCVELAtkavgstspnpmVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDpnpivnskglerlrdaGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRipglseessskvIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILknlqpkmssqsivlegyl
MHTHRLSTPNHNLHQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIkakvkkvvvGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL
*************HQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSA********************RIITV******************KVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILK*****************
****R*S**NHNLHQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNS*****************************KDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL
**********HNLHQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL
********PNHNLHQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooo
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MHTHRLSTPNHNLHQLGLSPCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query427 2.2.26 [Sep-21-2011]
Q55158368 Riboflavin biosynthesis p N/A no 0.695 0.807 0.408 1e-59
O66534356 Riboflavin biosynthesis p yes no 0.709 0.851 0.395 1e-52
P25539367 Riboflavin biosynthesis p N/A no 0.515 0.599 0.456 3e-48
P44326372 Riboflavin biosynthesis p yes no 0.505 0.580 0.444 1e-46
P50853376 Riboflavin biosynthesis p yes no 0.508 0.577 0.418 4e-45
P70814371 Riboflavin biosynthesis p yes no 0.651 0.749 0.358 2e-42
Q89AB0372 Riboflavin biosynthesis p yes no 0.461 0.529 0.41 6e-42
P17618361 Riboflavin biosynthesis p yes no 0.489 0.578 0.413 1e-41
O84735375 Riboflavin biosynthesis p yes no 0.646 0.736 0.369 2e-40
Q9PLJ6371 Riboflavin biosynthesis p yes no 0.646 0.743 0.352 3e-39
>sp|Q55158|RIBD_SYNY3 Riboflavin biosynthesis protein RibD OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=ribD PE=3 SV=1 Back     alignment and function desciption
 Score =  231 bits (588), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/311 (40%), Positives = 186/311 (59%), Gaps = 14/311 (4%)

Query: 77  DGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGEL 136
           D  +MRRC+ LA  A+G T+PNP+VG VIV+  +IVG+GFHP+AGQPH E+FAL +AG+ 
Sbjct: 4   DQTHMRRCLTLAKTAIGKTAPNPLVGSVIVQGDEIVGQGFHPQAGQPHGEIFALWEAGDR 63

Query: 137 AEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
           A+GAT YV+LEPCNH GRTPPCTEA+I+A + KVVVGM+DPNP+V  KG+ RLR AGI+V
Sbjct: 64  AKGATLYVNLEPCNHQGRTPPCTEAIIQAGIAKVVVGMVDPNPLVAGKGISRLRQAGIEV 123

Query: 197 TVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEG--VAESGG--YYSQ 252
            VGVE+E C+RLNEAF  RI   +PF   +Y ++++G +         V  S    +  Q
Sbjct: 124 KVGVEEEACQRLNEAFCFRIKHQRPFGIFKYAMTLDGKIATAQAHSSWVTSSSARHWVHQ 183

Query: 253 LLQEYDAIILSASSTKKYS-IPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIV 311
           L  +  A+I+  ++ ++ + +  +       P R++   +   PI    L ++  +K +V
Sbjct: 184 LRSQCQAVIIGGNTVRRDNPLLTNHGVGEVNPLRVVLSRSLDLPIEAQ-LWDQDVAKTLV 242

Query: 312 FTDG--EITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLK 369
            T+   +      +    +ET+ L QL   AV++  Y      VL +  G      +L  
Sbjct: 243 ITEKTCDRNTLSHLEKLEVETLVLEQLTPLAVMEELYQRNCLQVLWECGG------ILAA 296

Query: 370 EGIEQNLLQKI 380
           E I    +QK+
Sbjct: 297 EAIAMGTVQKV 307
Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'-phosphate.
Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)
EC: 1EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 9EC: 3
>sp|O66534|RIBD_AQUAE Riboflavin biosynthesis protein RibD OS=Aquifex aeolicus (strain VF5) GN=ribD PE=3 SV=1 Back     alignment and function description
>sp|P25539|RIBD_ECOLI Riboflavin biosynthesis protein RibD OS=Escherichia coli (strain K12) GN=ribD PE=1 SV=1 Back     alignment and function description
>sp|P44326|RIBD_HAEIN Riboflavin biosynthesis protein RibD OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=ribD PE=3 SV=1 Back     alignment and function description
>sp|P50853|RIBD_ACTPL Riboflavin biosynthesis protein RibD OS=Actinobacillus pleuropneumoniae GN=ribD PE=3 SV=2 Back     alignment and function description
>sp|P70814|RIBD_BACAM Riboflavin biosynthesis protein RibD OS=Bacillus amyloliquefaciens GN=ribD PE=3 SV=1 Back     alignment and function description
>sp|Q89AB0|RIBD_BUCBP Riboflavin biosynthesis protein RibD OS=Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) GN=ribD PE=3 SV=1 Back     alignment and function description
>sp|P17618|RIBD_BACSU Riboflavin biosynthesis protein RibD OS=Bacillus subtilis (strain 168) GN=ribD PE=1 SV=1 Back     alignment and function description
>sp|O84735|RIBD_CHLTR Riboflavin biosynthesis protein RibD OS=Chlamydia trachomatis (strain D/UW-3/Cx) GN=ribD PE=3 SV=1 Back     alignment and function description
>sp|Q9PLJ6|RIBD_CHLMU Riboflavin biosynthesis protein RibD OS=Chlamydia muridarum (strain MoPn / Nigg) GN=ribD PE=3 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query427
225454196379 PREDICTED: riboflavin biosynthesis prote 0.882 0.994 0.670 1e-146
224067884378 predicted protein [Populus trichocarpa] 0.817 0.923 0.717 1e-140
297745271348 unnamed protein product [Vitis vinifera] 0.810 0.994 0.694 1e-139
356506247425 PREDICTED: riboflavin biosynthesis prote 0.857 0.861 0.627 1e-126
356522624424 PREDICTED: riboflavin biosynthesis prote 0.864 0.870 0.631 1e-124
449524924425 PREDICTED: LOW QUALITY PROTEIN: riboflav 0.939 0.943 0.558 1e-124
449441472425 PREDICTED: riboflavin biosynthesis prote 0.939 0.943 0.558 1e-124
297804068426 cytidine/deoxycytidylate deaminase famil 0.906 0.908 0.578 1e-123
357478665431 Riboflavin biosynthesis protein RibD [Me 0.854 0.846 0.601 1e-123
18415600426 diaminohydroxyphosphoribosylaminopyrimid 0.948 0.950 0.568 1e-122
>gi|225454196|ref|XP_002273879.1| PREDICTED: riboflavin biosynthesis protein RibD-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  523 bits (1347), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 254/379 (67%), Positives = 307/379 (81%), Gaps = 2/379 (0%)

Query: 49  LAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKD 108
           ++KS T  R   G   +RC  +Q  + DDGFYMRRCVELA KA+G TSPNPMVGCVIVKD
Sbjct: 1   MSKSQTGLRSYGGLVSVRCEALQGKE-DDGFYMRRCVELARKAIGCTSPNPMVGCVIVKD 59

Query: 109 GKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVK 168
           GK+VGEGFHPKAGQPH EVFALRDAG+LAE ATAYVSLEPCNHYGRTPPCTEALIKAKVK
Sbjct: 60  GKVVGEGFHPKAGQPHGEVFALRDAGDLAENATAYVSLEPCNHYGRTPPCTEALIKAKVK 119

Query: 169 KVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYT 228
           KVV+GM+DPNPIV SKG++RLRDAGI+VTV VE+ELCK+LNEA+IH+++TGKPF TLRY+
Sbjct: 120 KVVIGMVDPNPIVASKGVDRLRDAGIEVTVAVEEELCKKLNEAYIHQMLTGKPFVTLRYS 179

Query: 229 LSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASS-TKKYSIPASQEPDANQPFRII 287
           LS+NGH+LDQLGEGV E+GGYYSQL+QEYDAIILS ++ T+K+S PASQEP ANQP  I+
Sbjct: 180 LSINGHILDQLGEGVEEAGGYYSQLVQEYDAIILSPTTVTEKFSFPASQEPGANQPLHIL 239

Query: 288 TVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYS 347
              +  SP +IP    E++SKVI+F D E  VEP+M  KGIETV L Q+NL AVL+YC  
Sbjct: 240 IAKSPISPNQIPIPHTEATSKVIIFADNETAVEPEMVQKGIETVVLDQINLNAVLEYCKR 299

Query: 348 HGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRL 407
            G CS+L+DLRGN+G  E LLK+ +E+NLLQK+VVEVLP W+ ++       L +L K +
Sbjct: 300 QGLCSILLDLRGNFGYFEDLLKQSLEENLLQKVVVEVLPFWSTNEEEGLPLALKNLRKGI 359

Query: 408 ILKNLQPKMSSQSIVLEGY 426
            LKN+  + S+ S+VLEGY
Sbjct: 360 RLKNITSRNSNDSVVLEGY 378

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224067884|ref|XP_002302581.1| predicted protein [Populus trichocarpa] gi|222844307|gb|EEE81854.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297745271|emb|CBI40351.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356506247|ref|XP_003521898.1| PREDICTED: riboflavin biosynthesis protein RibD-like [Glycine max] Back     alignment and taxonomy information
>gi|356522624|ref|XP_003529946.1| PREDICTED: riboflavin biosynthesis protein RibD-like [Glycine max] Back     alignment and taxonomy information
>gi|449524924|ref|XP_004169471.1| PREDICTED: LOW QUALITY PROTEIN: riboflavin biosynthesis protein RibD-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449441472|ref|XP_004138506.1| PREDICTED: riboflavin biosynthesis protein RibD-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297804068|ref|XP_002869918.1| cytidine/deoxycytidylate deaminase family protein [Arabidopsis lyrata subsp. lyrata] gi|297315754|gb|EFH46177.1| cytidine/deoxycytidylate deaminase family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|357478665|ref|XP_003609618.1| Riboflavin biosynthesis protein RibD [Medicago truncatula] gi|355510673|gb|AES91815.1| Riboflavin biosynthesis protein RibD [Medicago truncatula] Back     alignment and taxonomy information
>gi|18415600|ref|NP_567618.1| diaminohydroxyphosphoribosylaminopyrimidine deaminase / 5-amino-6-(5-phosphoribosylamino)uracil reductase [Arabidopsis thaliana] gi|26452452|dbj|BAC43311.1| unknown protein [Arabidopsis thaliana] gi|29824151|gb|AAP04036.1| unknown protein [Arabidopsis thaliana] gi|332658979|gb|AEE84379.1| diaminohydroxyphosphoribosylaminopyrimidine deaminase / 5-amino-6-(5-phosphoribosylamino)uracil reductase [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query427
TAIR|locus:2133074426 PyrD "pyrimidine deaminase" [A 0.918 0.920 0.566 5.9e-112
TIGR_CMR|GSU_1688369 GSU_1688 "riboflavin biosynthe 0.796 0.921 0.337 2.9e-48
TIGR_CMR|CHY_1475361 CHY_1475 "riboflavin biosynthe 0.805 0.952 0.352 4.4e-45
UNIPROTKB|Q9KPU1367 VC_2271 "Riboflavin-specific d 0.758 0.882 0.355 2.2e-43
TIGR_CMR|VC_2271367 VC_2271 "riboflavin biosynthes 0.758 0.882 0.355 2.2e-43
UNIPROTKB|P25539367 ribD "fused diaminohydroxyphos 0.517 0.602 0.454 4.5e-43
TIGR_CMR|DET_1190365 DET_1190 "riboflavin biosynthe 0.789 0.923 0.326 9.3e-43
TIGR_CMR|SO_3469381 SO_3469 "riboflavin biosynthes 0.391 0.438 0.514 9.6e-41
TIGR_CMR|CPS_0730389 CPS_0730 "riboflavin biosynthe 0.377 0.413 0.461 2.8e-40
TIGR_CMR|BA_4331370 BA_4331 "riboflavin biosynthes 0.555 0.640 0.390 2.1e-38
TAIR|locus:2133074 PyrD "pyrimidine deaminase" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1105 (394.0 bits), Expect = 5.9e-112, P = 5.9e-112
 Identities = 231/408 (56%), Positives = 289/408 (70%)

Query:    27 TSSPTLAFNQNS--TFGFCNSLKRLAKSLTS-TRKCRGGYRIRCGQVQNNDKDDGFYMRR 83
             +S+P   FN  S  +   C   KRL KS T  +       R    + ++ + DD FYMR+
Sbjct:    26 SSNPRRIFNLTSLQSPNHC-FFKRLHKSQTGFSNPVLAAMR----REEDVEVDDSFYMRK 80

Query:    84 CVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAY 143
             CVELA +A+G TSPNPMVGCVIVKDG IVG+GFHPKAGQPHAEVFALRDAGELAE ATAY
Sbjct:    81 CVELAKRAIGCTSPNPMVGCVIVKDGDIVGQGFHPKAGQPHAEVFALRDAGELAENATAY 140

Query:   144 VSLEPCNHYGRTPPCTEALIXXXXXXXXXGMLDPNPIVNSKGLERLRDAGIDVTVGVEDE 203
             VSLEPCNHYGRTPPCTEALI         GM+DPNPIV S G+ RL+DAGIDVTV VE+E
Sbjct:   141 VSLEPCNHYGRTPPCTEALIKAKVRRVVIGMVDPNPIVFSSGISRLKDAGIDVTVSVEEE 200

Query:   204 LCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILS 263
             LCK++NE FIHR++TGKPF  LRY++SVNG +LD++G+G ++SGGYYS+LLQEYDAIILS
Sbjct:   201 LCKKMNEGFIHRMLTGKPFLALRYSMSVNGCLLDKIGQGASDSGGYYSKLLQEYDAIILS 260

Query:   264 ASSTKKYSIPASQEPD--ANQPFRIITVSNHASPIRIPGLS---EESSSKVIVFTDGEIT 318
             +S + + S  +SQE    + QP +II  SN A    I   S   EES  KV+VFT  E  
Sbjct:   261 SSLSDELSSISSQEAINVSIQPIQIIVASN-AQQSHILASSHTVEESGPKVVVFTAKESV 319

Query:   319 VEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQ 378
              E  + + G+ETV L ++NL ++LDYCY+ G CSVL+DLRGN  DLE+LL++G EQ LLQ
Sbjct:   320 AESGISSSGVETVVLEKINLDSILDYCYNRGLCSVLLDLRGNVKDLEVLLRDGFEQKLLQ 379

Query:   379 KIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGY 426
             K+++EVLP W+  D     ++     K +  K+LQ K    S++LEGY
Sbjct:   380 KVIIEVLPEWSTKDERQIASMKWLESKHV--KDLQSKQLGGSVLLEGY 425
GO:0003824 "catalytic activity" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA;ISS
GO:0008835 "diaminohydroxyphosphoribosylaminopyrimidine deaminase activity" evidence=IEA;IGI
GO:0009231 "riboflavin biosynthetic process" evidence=IEA;IDA
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0016787 "hydrolase activity" evidence=IEA;ISS
GO:0055114 "oxidation-reduction process" evidence=IEA
GO:0009570 "chloroplast stroma" evidence=IDA
TIGR_CMR|GSU_1688 GSU_1688 "riboflavin biosynthesis protein RibD" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_1475 CHY_1475 "riboflavin biosynthesis protein RibD" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KPU1 VC_2271 "Riboflavin-specific deaminase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_2271 VC_2271 "riboflavin biosynthesis protein RibD" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
UNIPROTKB|P25539 ribD "fused diaminohydroxyphosphoribosylaminopyrimidine deaminase / 5-amino-6-(5-phosphoribosylamino)uracil reductase" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|DET_1190 DET_1190 "riboflavin biosynthesis protein RibD" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms
TIGR_CMR|SO_3469 SO_3469 "riboflavin biosynthesis protein RibD" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_0730 CPS_0730 "riboflavin biosynthesis protein RibD" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|BA_4331 BA_4331 "riboflavin biosynthesis protein RibD" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer1.1.10.766
3rd Layer3.5.40.766
3rd Layer3.5.4.260.824
3rd Layer1.1.1.1930.824

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query427
PLN02807380 PLN02807, PLN02807, diaminohydroxyphosphoribosylam 0.0
TIGR00326344 TIGR00326, eubact_ribD, riboflavin biosynthesis pr 2e-86
COG0117146 COG0117, RibD, Pyrimidine deaminase [Coenzyme meta 4e-84
PRK10786367 PRK10786, ribD, bifunctional diaminohydroxyphospho 7e-66
cd01284115 cd01284, Riboflavin_deaminase-reductase, Riboflavi 6e-65
pfam00383104 pfam00383, dCMP_cyt_deam_1, Cytidine and deoxycyti 3e-25
COG0590152 COG0590, CumB, Cytosine/adenosine deaminases [Nucl 2e-17
cd01285109 cd01285, nucleoside_deaminase, Nucleoside deaminas 9e-16
PRK10860172 PRK10860, PRK10860, tRNA-specific adenosine deamin 1e-12
COG2131164 COG2131, ComEB, Deoxycytidylate deaminase [Nucleot 3e-12
cd0078696 cd00786, cytidine_deaminase-like, Cytidine and deo 5e-11
cd01286131 cd01286, deoxycytidylate_deaminase, Deoxycytidylat 2e-09
PHA02588168 PHA02588, cd, deoxycytidylate deaminase; Provision 1e-07
TIGR02571151 TIGR02571, ComEB, ComE operon protein 2 3e-04
>gnl|CDD|215433 PLN02807, PLN02807, diaminohydroxyphosphoribosylaminopyrimidine deaminase Back     alignment and domain information 
 Score =  619 bits (1597), Expect = 0.0
 Identities = 238/377 (63%), Positives = 288/377 (76%), Gaps = 3/377 (0%)

Query: 51  KSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGK 110
                +R+      +RC   +    DD FYMRRCVELA KA+G TSPNPMVGCVIVKDG+
Sbjct: 7   IRTAESRRFGRRTSVRC-SARAAGDDDSFYMRRCVELARKAIGCTSPNPMVGCVIVKDGR 65

Query: 111 IVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKV 170
           IVGEGFHPKAGQPHAEVFALRDAG+LAE ATAYVSLEPCNHYGRTPPCTEALIKAKVK+V
Sbjct: 66  IVGEGFHPKAGQPHAEVFALRDAGDLAENATAYVSLEPCNHYGRTPPCTEALIKAKVKRV 125

Query: 171 VVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLS 230
           VVGM+DPNPIV SKG+ERLRDAGI+VTVGVE+ELC++LNEAFIHR++TGKPF TLRY++S
Sbjct: 126 VVGMVDPNPIVASKGIERLRDAGIEVTVGVEEELCRKLNEAFIHRMLTGKPFVTLRYSMS 185

Query: 231 VNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVS 290
           +NG +L+Q+GEG  ++GGYYSQLLQEYDA+ILS++      +P SQE  A QP RII   
Sbjct: 186 MNGCLLNQIGEGADDAGGYYSQLLQEYDAVILSSALADADPLPLSQEAGAKQPLRIIIAR 245

Query: 291 NHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGF 350
           + +SP++IP L EES++KV+V  D E + EP +  KG+E V L+Q+NL ++LD CY  G 
Sbjct: 246 SESSPLQIPSLREESAAKVLVLADKESSAEPVLRRKGVEVVVLNQINLDSILDLCYQRGL 305

Query: 351 CSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILK 410
           CSVL+DLRGN G LE LLK+ +E  LLQK+VVEVLP W+GS G           +   LK
Sbjct: 306 CSVLLDLRGNVGGLESLLKDALEDKLLQKVVVEVLPFWSGSQG--QSIASFGGSQSFKLK 363

Query: 411 NLQPKMSSQSIVLEGYL 427
            L  +    S+VLEGY 
Sbjct: 364 RLTSREVGGSVVLEGYF 380

Length = 380
>gnl|CDD|232920 TIGR00326, eubact_ribD, riboflavin biosynthesis protein RibD Back     alignment and domain information
>gnl|CDD|223195 COG0117, RibD, Pyrimidine deaminase [Coenzyme metabolism] Back     alignment and domain information
>gnl|CDD|182729 PRK10786, ribD, bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional Back     alignment and domain information
>gnl|CDD|238611 cd01284, Riboflavin_deaminase-reductase, Riboflavin-specific deaminase Back     alignment and domain information
>gnl|CDD|215887 pfam00383, dCMP_cyt_deam_1, Cytidine and deoxycytidylate deaminase zinc-binding region Back     alignment and domain information
>gnl|CDD|223663 COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|238612 cd01285, nucleoside_deaminase, Nucleoside deaminases include adenosine, guanine and cytosine deaminases Back     alignment and domain information
>gnl|CDD|182786 PRK10860, PRK10860, tRNA-specific adenosine deaminase; Provisional Back     alignment and domain information
>gnl|CDD|225042 COG2131, ComEB, Deoxycytidylate deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>gnl|CDD|238406 cd00786, cytidine_deaminase-like, Cytidine and deoxycytidylate deaminase zinc-binding region Back     alignment and domain information
>gnl|CDD|238613 cd01286, deoxycytidylate_deaminase, Deoxycytidylate deaminase domain Back     alignment and domain information
>gnl|CDD|222894 PHA02588, cd, deoxycytidylate deaminase; Provisional Back     alignment and domain information
>gnl|CDD|131622 TIGR02571, ComEB, ComE operon protein 2 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 427
PLN02807380 diaminohydroxyphosphoribosylaminopyrimidine deamin 100.0
PRK10786367 ribD bifunctional diaminohydroxyphosphoribosylamin 100.0
TIGR00326344 eubact_ribD riboflavin biosynthesis protein RibD. 100.0
PRK14719360 bifunctional RNAse/5-amino-6-(5-phosphoribosylamin 100.0
COG0117146 RibD Pyrimidine deaminase [Coenzyme metabolism] 100.0
COG1985218 RibD Pyrimidine reductase, riboflavin biosynthesis 100.0
PRK05625217 5-amino-6-(5-phosphoribosylamino)uracil reductase; 100.0
TIGR01508210 rib_reduct_arch 2,5-diamino-6-hydroxy-4-(5-phospho 100.0
TIGR00227216 ribD_Cterm riboflavin-specific deaminase C-termina 100.0
PRK14059251 hypothetical protein; Provisional 100.0
PRK10860172 tRNA-specific adenosine deaminase; Provisional 100.0
cd01284115 Riboflavin_deaminase-reductase Riboflavin-specific 99.98
PF01872200 RibD_C: RibD C-terminal domain; InterPro: IPR00273 99.97
COG0590152 CumB Cytosine/adenosine deaminases [Nucleotide tra 99.96
TIGR02571151 ComEB ComE operon protein 2. This protein is found 99.96
PHA02588168 cd deoxycytidylate deaminase; Provisional 99.96
cd01286131 deoxycytidylate_deaminase Deoxycytidylate deaminas 99.93
COG2131164 ComEB Deoxycytidylate deaminase [Nucleotide transp 99.91
cd01285109 nucleoside_deaminase Nucleoside deaminases include 99.91
PF00383102 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deam 99.88
cd0078696 cytidine_deaminase-like Cytidine and deoxycytidyla 99.87
KOG1018169 consensus Cytosine deaminase FCY1 and related enzy 99.87
KOG3127230 consensus Deoxycytidylate deaminase [Nucleotide tr 99.85
cd00209158 DHFR Dihydrofolate reductase (DHFR). Reduces 7,8-d 99.56
COG0262167 FolA Dihydrofolate reductase [Coenzyme metabolism] 99.51
cd01283112 cytidine_deaminase Cytidine deaminase zinc-binding 99.38
KOG2771344 consensus Subunit of tRNA-specific adenosine-34 de 98.89
PTZ00164 514 bifunctional dihydrofolate reductase-thymidylate s 98.76
PRK00478 505 scpA segregation and condensation protein A/unknow 98.64
PF14439136 Bd3614-deam: Bd3614-like deaminase 98.61
TIGR01354127 cyt_deam_tetra cytidine deaminase, homotetrameric. 98.27
PRK10769159 folA dihydrofolate reductase; Provisional 98.24
PF00186161 DHFR_1: Dihydrofolate reductase; InterPro: IPR0017 98.03
PRK06848139 hypothetical protein; Validated 97.14
PRK05578131 cytidine deaminase; Validated 96.77
PRK12411132 cytidine deaminase; Provisional 96.42
KOG1324190 consensus Dihydrofolate reductase [Coenzyme transp 96.2
TIGR01355283 cyt_deam_dimer cytidine deaminase, homodimeric. Th 96.07
COG0295134 Cdd Cytidine deaminase [Nucleotide transport and m 96.05
PRK08298136 cytidine deaminase; Validated 95.93
PLN02402303 cytidine deaminase 95.73
PF08210188 APOBEC_N: APOBEC-like N-terminal domain; InterPro: 95.7
PRK09027295 cytidine deaminase; Provisional 95.7
PRK09027295 cytidine deaminase; Provisional 95.02
PLN02182339 cytidine deaminase 94.06
KOG0833173 consensus Cytidine deaminase [Nucleotide transport 93.8
PF14437146 MafB19-deam: MafB19-like deaminase 91.13
TIGR01355283 cyt_deam_dimer cytidine deaminase, homodimeric. Th 83.05
PLN02402303 cytidine deaminase 82.68
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase Back     alignment and domain information 
Probab=100.00  E-value=4e-82  Score=639.54  Aligned_cols=350  Identities=66%  Similarity=1.109  Sum_probs=321.5

Q ss_pred             CChhHHHHHHHHHHHHHHccCCCCCCCcEEEEEEeCCeEEEEEecCCCCCCcHHHHHHHHHhhhcCCCEEEEcCCCCCCC
Q 014311           73 NDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHY  152 (427)
Q Consensus        73 ~~~~~~~~m~~a~~~A~~~~~~~~~~~~vGaviv~~g~ii~~g~n~~~~~~HAE~~ai~~~~~~~~~~tlY~t~ePC~~~  152 (427)
                      ..++|++||++|+++|+++.+.++|||+||||||++|+||++|+|...+.+|||++||++|+..+.|||||||+|||+|+
T Consensus        28 ~~~~d~~~M~~Al~lA~~~~~~~~~np~VGaViV~~g~Ii~~g~n~~~g~~HAEi~Ai~~a~~~~~g~tlyvTLEPC~h~  107 (380)
T PLN02807         28 AGDDDSFYMRRCVELARKAIGCTSPNPMVGCVIVKDGRIVGEGFHPKAGQPHAEVFALRDAGDLAENATAYVSLEPCNHY  107 (380)
T ss_pred             CCchHHHHHHHHHHHHHhhcccCCCCCCEEEEEEECCEEEEEEeCCCCCCcCHHHHHHHHhhhhcCCcEEEEEcCCCcCC
Confidence            45679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHhcCccEEEEeecCCCCCCCchhHHHHhhCCcEEEEecccchhhccccceeeeeecCcceEEEEEeeccC
Q 014311          153 GRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVN  232 (427)
Q Consensus       153 g~t~~C~~ai~~~gi~~vv~~~~d~~~~~~~~~~~~l~~~gi~V~~g~~~~e~~~l~~~f~~r~~~~rP~V~~k~A~SLD  232 (427)
                      ||||||+.||+++||+|||||..||++.+.++|.++|+++||+|..|++++||.++++.||+|.+++||||++|+|+|||
T Consensus       108 Gktp~C~~aii~agI~rVv~g~~dp~~~~~g~g~~~l~~~gi~V~~g~~~~e~~~l~~~f~~~~~~~rP~V~lK~A~SlD  187 (380)
T PLN02807        108 GRTPPCTEALIKAKVKRVVVGMVDPNPIVASKGIERLRDAGIEVTVGVEEELCRKLNEAFIHRMLTGKPFVTLRYSMSMN  187 (380)
T ss_pred             CCChHHHHHHHHhCCCEEEEEecCCCccccchHHHHHHhCCCEEEeCcCHHHHHHHHHHHHHHHhhccccEEEEEEEcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeecCCCCCccccchHHHHHhhccCEEEEccccccccCCCCCCCCCCCCCeEEEEccCCCCCCCCCccccCCCceEEEE
Q 014311          233 GHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNHASPIRIPGLSEESSSKVIVF  312 (427)
Q Consensus       233 G~Ia~~~g~~~wi~~~~~~~~r~~~DaiLvG~T~~~d~p~l~~r~~~~~~P~~vVvd~~~~l~~~~~l~~~~~~~~~~v~  312 (427)
                      |+||...|++.|.++.++|++|+++||||+|+|+..|||.|++|.+..++|++||+|+++++|.+.++|+.....|+||+
T Consensus       188 Gkia~~~g~s~~~s~~~vh~lRa~~DAIlVG~Tv~~DnP~Lt~R~~~~~~PiRVVld~~l~~p~~~~i~~~~~~~~~iv~  267 (380)
T PLN02807        188 GCLLNQIGEGADDAGGYYSQLLQEYDAVILSSALADADPLPLSQEAGAKQPLRIIIARSESSPLQIPSLREESAAKVLVL  267 (380)
T ss_pred             CCeeCCCCCChhhhhHHHHHHHhhCCEEEEcCEeeccCCCCccCCCCCCCCEEEEEcCCCCCCCcceecccCCCCCEEEE
Confidence            99999999999999999999999999999998899999999999875689999999999999999999975556689999


Q ss_pred             ecCCCCCccccccCCcEEEEeCCCCHHHHHHHHHHCCCCeEEEEecC---CcccHHHHHHHHHHCCCccEEEEEEEeeEe
Q 014311          313 TDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRG---NYGDLEMLLKEGIEQNLLQKIVVEVLPVWN  389 (427)
Q Consensus       313 t~~~~~~~~~l~~~~v~~i~~~~~dl~~~l~~L~~~g~~~IlveGG~---GGg~L~~l~~sfl~~gLvDEl~l~i~P~ll  389 (427)
                      +.+..+....++..|++++..+++|+.++|+.|+++|+++|||||||   ||   ++|+++|++++||||+++|++|+++
T Consensus       268 t~~~~~~~~~l~~~gv~vv~~~~~dl~~iL~~L~~~Gi~svLVEGG~~~~~G---~~L~~sfl~~~LvDei~~yiAP~il  344 (380)
T PLN02807        268 ADKESSAEPVLRRKGVEVVVLNQINLDSILDLCYQRGLCSVLLDLRGNVGGL---ESLLKDALEDKLLQKVVVEVLPFWS  344 (380)
T ss_pred             ECCchhhHHHHHhCCeEEEECCCCCHHHHHHHHHHCCCCEEEEecCCCCCCH---HHHHHHHHHCCCccEEEEEEcCcee
Confidence            86654444567788999887667899999999999999999999741   25   5669999999999999999999999


Q ss_pred             CCCCCCCCccccccccccCeeeeeeEEecCcEEEEEeC
Q 014311          390 GSDGGNPHTLLNSLGKRLILKNLQPKMSSQSIVLEGYL  427 (427)
Q Consensus       390 G~~g~~l~~~~~~~~~~~~L~l~~~~~~g~di~~~~Y~  427 (427)
                      |+.+.+.+  +..+.+..+|++++++++|+|+++.+|+
T Consensus       345 G~~~~~~~--~~~~~~~~~l~~~~~~~~g~Dv~l~~~~  380 (380)
T PLN02807        345 GSQGQSIA--SFGGSQSFKLKRLTSREVGGSVVLEGYF  380 (380)
T ss_pred             cCCCCccc--ccChhhCcccEeeeEEEECCeEEEEEEC
Confidence            97554432  3456788999999999999999998886

>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional Back     alignment and domain information
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD Back     alignment and domain information
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional Back     alignment and domain information
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism] Back     alignment and domain information
>COG1985 RibD Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism] Back     alignment and domain information
>PRK05625 5-amino-6-(5-phosphoribosylamino)uracil reductase; Validated Back     alignment and domain information
>TIGR01508 rib_reduct_arch 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine 1'-reductase, archaeal Back     alignment and domain information
>TIGR00227 ribD_Cterm riboflavin-specific deaminase C-terminal domain Back     alignment and domain information
>PRK14059 hypothetical protein; Provisional Back     alignment and domain information
>PRK10860 tRNA-specific adenosine deaminase; Provisional Back     alignment and domain information
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase Back     alignment and domain information
>PF01872 RibD_C: RibD C-terminal domain; InterPro: IPR002734 This domain is found in the C terminus of the bifunctional deaminase-reductase of Escherichia coli, Bacillus subtilis and other bacteria in combination with IPR002125 from INTERPRO that catalyses the second and third steps in the biosynthesis of riboflavin, i Back     alignment and domain information
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR02571 ComEB ComE operon protein 2 Back     alignment and domain information
>PHA02588 cd deoxycytidylate deaminase; Provisional Back     alignment and domain information
>cd01286 deoxycytidylate_deaminase Deoxycytidylate deaminase domain Back     alignment and domain information
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases Back     alignment and domain information
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3 Back     alignment and domain information
>cd00786 cytidine_deaminase-like Cytidine and deoxycytidylate deaminase zinc-binding region Back     alignment and domain information
>KOG1018 consensus Cytosine deaminase FCY1 and related enzymes [Nucleotide transport and metabolism] Back     alignment and domain information
>KOG3127 consensus Deoxycytidylate deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>cd00209 DHFR Dihydrofolate reductase (DHFR) Back     alignment and domain information
>COG0262 FolA Dihydrofolate reductase [Coenzyme metabolism] Back     alignment and domain information
>cd01283 cytidine_deaminase Cytidine deaminase zinc-binding domain Back     alignment and domain information
>KOG2771 consensus Subunit of tRNA-specific adenosine-34 deaminase [RNA processing and modification] Back     alignment and domain information
>PTZ00164 bifunctional dihydrofolate reductase-thymidylate synthase; Provisional Back     alignment and domain information
>PRK00478 scpA segregation and condensation protein A/unknown domain fusion protein; Provisional Back     alignment and domain information
>PF14439 Bd3614-deam: Bd3614-like deaminase Back     alignment and domain information
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric Back     alignment and domain information
>PRK10769 folA dihydrofolate reductase; Provisional Back     alignment and domain information
>PF00186 DHFR_1: Dihydrofolate reductase; InterPro: IPR001796 Dihydrofolate reductase (DHFR) (1 Back     alignment and domain information
>PRK06848 hypothetical protein; Validated Back     alignment and domain information
>PRK05578 cytidine deaminase; Validated Back     alignment and domain information
>PRK12411 cytidine deaminase; Provisional Back     alignment and domain information
>KOG1324 consensus Dihydrofolate reductase [Coenzyme transport and metabolism] Back     alignment and domain information
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric Back     alignment and domain information
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>PRK08298 cytidine deaminase; Validated Back     alignment and domain information
>PLN02402 cytidine deaminase Back     alignment and domain information
>PF08210 APOBEC_N: APOBEC-like N-terminal domain; InterPro: IPR013158 This domain is found at the N terminus of the Apolipoprotein B mRNA editing enzyme Back     alignment and domain information
>PRK09027 cytidine deaminase; Provisional Back     alignment and domain information
>PRK09027 cytidine deaminase; Provisional Back     alignment and domain information
>PLN02182 cytidine deaminase Back     alignment and domain information
>KOG0833 consensus Cytidine deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>PF14437 MafB19-deam: MafB19-like deaminase Back     alignment and domain information
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric Back     alignment and domain information
>PLN02402 cytidine deaminase Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query427
2g6v_A402 The Crystal Structure Of Ribd From Escherichia Coli 2e-45
2o7p_A380 The Crystal Structure Of Ribd From Escherichia Coli 3e-45
2b3z_A373 Crystal Structure Of A Bifunctional Deaminase And R 6e-40
2hxv_A360 Crystal Structure Of A Diaminohydroxyphosphoribosyl 3e-39
1z3a_A168 Crystal Structure Of Trna Adenosine Deaminase Tada 7e-06
1ysd_A161 Yeast Cytosine Deaminase Double Mutant Length = 161 8e-06
1ysb_A161 Yeast Cytosine Deaminase Triple Mutant Length = 161 9e-06
2o3k_A161 Yeast Cytosine Deaminase D92e Triple Mutant Bound T 2e-05
1ox7_A161 Crystal Structure Of Yeast Cytosine Deaminase Apo-E 2e-05
1p6o_A161 The Crystal Structure Of Yeast Cytosine Deaminase B 2e-05
1uaq_A158 The Crystal Structure Of Yeast Cytosine Deaminase L 2e-05
3ocq_A183 Crystal Structure Of Trna-Specific Adenosine Deamin 4e-05
>pdb|2G6V|A Chain A, The Crystal Structure Of Ribd From Escherichia Coli Length = 402 Back     alignment and structure 
Iteration: 1

 Score =  179 bits (454), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 103/239 (43%), Positives = 138/239 (57%), Gaps = 19/239 (7%)
Query: 77  DGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGEL 136
           D +Y  R ++LA +   +T PNP VGCVIVKDG+IVGEG+H +AG+PHAEV ALR AGE 
Sbjct: 30  DEYYXARALKLAQRGRFTTHPNPNVGCVIVKDGEIVGEGYHQRAGEPHAEVHALRXAGEK 89
Query: 137 AEGATAYVSLEPCNHYGRTPPCTEALIXXXXXXXXXGMLDPNPIVNSKGLERLRDAGIDV 196
           A+GATAYV+LEPC+H+GRTPPC +ALI            DPNP V  +GL RL+ AGIDV
Sbjct: 90  AKGATAYVTLEPCSHHGRTPPCCDALIAAGVARVVASXQDPNPQVAGRGLYRLQQAGIDV 149
Query: 197 TVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEG---VAESGGYYSQL 253
           + G+     ++LN+ F+ R  TG P+  L+   S++G      GE     +       QL
Sbjct: 150 SHGLXXSEAEQLNKGFLKRXRTGFPYIQLKLGASLDGRTAXASGESQWITSPQARRDVQL 209
Query: 254 LQEYDAIILSASSTKKYSIPA-------------SQEPDAN--QPFRIITVS-NHASPI 296
           L+     IL++S+T     PA             +  P  N  QP RI+  S N  +P+
Sbjct: 210 LRAQSHAILTSSATVLADDPALTVRWSELDEQTQALYPQQNLRQPIRIVIDSQNRVTPV 268
>pdb|2O7P|A Chain A, The Crystal Structure Of Ribd From Escherichia Coli In Complex With The Oxidised Nadp+ Cofactor In The Active Site Of The Reductase Domain Length = 380 Back     alignment and structure
>pdb|2B3Z|A Chain A, Crystal Structure Of A Bifunctional Deaminase And Reductase Involved In Riboflavin Biosynthesis Length = 373 Back     alignment and structure
>pdb|2HXV|A Chain A, Crystal Structure Of A Diaminohydroxyphosphoribosylaminopyrimidine Deaminase 5-Amino-6-(5-Phosphoribosylamino)uracil Reductase (Tm1828) From Thermotoga Maritima At 1.80 A Resolution Length = 360 Back     alignment and structure
>pdb|1Z3A|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From Escherichia Coli Length = 168 Back     alignment and structure
>pdb|1YSD|A Chain A, Yeast Cytosine Deaminase Double Mutant Length = 161 Back     alignment and structure
>pdb|1YSB|A Chain A, Yeast Cytosine Deaminase Triple Mutant Length = 161 Back     alignment and structure
>pdb|2O3K|A Chain A, Yeast Cytosine Deaminase D92e Triple Mutant Bound To Transition State Analogue Hpy Length = 161 Back     alignment and structure
>pdb|1OX7|A Chain A, Crystal Structure Of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound Length = 161 Back     alignment and structure
>pdb|1P6O|A Chain A, The Crystal Structure Of Yeast Cytosine Deaminase Bound To 4(R)-Hydroxyl-3,4-Dihydropyrimidine At 1.14 Angstroms. Length = 161 Back     alignment and structure
>pdb|1UAQ|A Chain A, The Crystal Structure Of Yeast Cytosine Deaminase Length = 158 Back     alignment and structure
>pdb|3OCQ|A Chain A, Crystal Structure Of Trna-Specific Adenosine Deaminase From Salmonella Enterica Length = 183 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query427
2g6v_A402 Riboflavin biosynthesis protein RIBD; RIBD APO str 1e-108
2b3z_A373 Riboflavin biosynthesis protein RIBD; alpha/beta/a 1e-108
2hxv_A360 Diaminohydroxyphosphoribosylaminopyrimidine deami 1e-107
1wkq_A164 Guanine deaminase; domain SWAP, the cytidine deami 2e-22
1z3a_A168 TRNA-specific adenosine deaminase; tRNA adenosine 2e-20
1p6o_A161 Cytosine deaminase; hydrolase, dimer, inhibitor bo 2e-20
2b3j_A159 TRNA adenosine deaminase; mixed alpha-beta, protei 2e-20
2nx8_A179 TRNA-specific adenosine deaminase; TAD, hydrolase; 4e-20
1wwr_A171 TRNA adenosine deaminase TADA; homodimer, riken st 6e-20
2a8n_A144 Cytidine and deoxycytidylate deaminase; RNA editin 1e-19
3dh1_A189 TRNA-specific adenosine deaminase 2; zinc-binding 9e-19
2g84_A197 Cytidine and deoxycytidylate deaminase zinc-bindi; 1e-17
2hvw_A184 Deoxycytidylate deaminase; 3-layer (alpha-beta)-sa 9e-15
2w4l_A178 DCMP deaminse, deoxycytidylate deaminase; pyrimidi 6e-11
1vq2_A193 DCMP deaminase, deoxycytidylate deaminase; hydrola 1e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
>2g6v_A Riboflavin biosynthesis protein RIBD; RIBD APO structure, structural genomics, structural proteomi europe, spine, hydrolase, oxidoreductase; 2.60A {Escherichia coli} PDB: 2obc_A* 2o7p_A* Length = 402 Back     alignment and structure
 Score =  324 bits (834), Expect = e-108
 Identities = 122/394 (30%), Positives = 183/394 (46%), Gaps = 73/394 (18%)

Query: 76  DDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGE 135
            D +YM R ++LA +   +T PNP VGCVIVKDG+IVGEG+H +AG+PHAEV ALR AGE
Sbjct: 29  QDEYYMARALKLAQRGRFTTHPNPNVGCVIVKDGEIVGEGYHQRAGEPHAEVHALRMAGE 88

Query: 136 LAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGID 195
            A+GATAYV+LEPC+H+GRTPPC +ALI A V +VV  M DPNP V  +GL RL+ AGID
Sbjct: 89  KAKGATAYVTLEPCSHHGRTPPCCDALIAAGVARVVASMQDPNPQVAGRGLYRLQQAGID 148

Query: 196 VTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQ--- 252
           V+ G+     ++LN+ F+ R+ TG P+  L+   S++G      GE         SQ   
Sbjct: 149 VSHGLMMSEAEQLNKGFLKRMRTGFPYIQLKLGASLDGRTAMASGE---------SQWIT 199

Query: 253 ----------LLQEYDAIILSA--------------SSTKKYSIPASQEPDANQPFRIIT 288
                     L  +  AI+ S+              S   + +     + +  QP RI+ 
Sbjct: 200 SPQARRDVQLLRAQSHAILTSSATVLADDPALTVRWSELDEQTQALYPQQNLRQPIRIV- 258

Query: 289 VSNHASPIRIPGLSE--ESSSKVIVFTDGEITVEPDMGTKGIETVNL----HQLNLKAVL 342
           + +     R+  +    +   +       E   +     + + T+ +      L+L  ++
Sbjct: 259 IDSQN---RVTPVHRIVQQPGETWFARTQE---DSREWPETVRTLLIPEHKGHLDLVVLM 312

Query: 343 DYCYSHGFCSVLVDLRGNYGDLEMLLKEG--------IEQNLLQKIVVEVLPVWNGSDGG 394
                    S+ V              E         ++  L+ +++V + P   GSD  
Sbjct: 313 MQLGKQQINSIWV--------------EAGPTLAGALLQAGLVDELIVYIAPKLLGSDAR 358

Query: 395 NPHTL--LNSLGKRLILKNLQPKMSSQSIVLEGY 426
              TL  L  L      K  + +     + L   
Sbjct: 359 GLCTLPGLEKLADAPQFKFKEIRHVGPDVCLHLV 392
>2b3z_A Riboflavin biosynthesis protein RIBD; alpha/beta/alpha, deaminase domain and reductase domain, hydrolase, oxidoreductase; 2.41A {Bacillus subtilis} SCOP: c.71.1.2 c.97.1.2 PDB: 2d5n_A* 3ex8_A* Length = 373 Back     alignment and structure
>2hxv_A Diaminohydroxyphosphoribosylaminopyrimidine deami amino-6-(5-phosphoribosylamino)uracil...; oxidoreductase, structural genomics; HET: NDP; 1.80A {Thermotoga maritima} SCOP: c.71.1.2 c.97.1.2 Length = 360 Back     alignment and structure
>1wkq_A Guanine deaminase; domain SWAP, the cytidine deaminase superfamily, substrate specificity, structural plasticity, hydrolase; 1.17A {Bacillus subtilis} SCOP: c.97.1.2 PDB: 1tiy_A Length = 164 Back     alignment and structure
>1z3a_A TRNA-specific adenosine deaminase; tRNA adenosine deaminase, dimer, zinc, metalloenzyme, structural genomics, PSI, protein structure initiative; 2.03A {Escherichia coli} SCOP: c.97.1.2 PDB: 3ocq_A Length = 168 Back     alignment and structure
>1p6o_A Cytosine deaminase; hydrolase, dimer, inhibitor bound; 1.14A {Saccharomyces cerevisiae} SCOP: c.97.1.2 PDB: 1ox7_A 1rb7_A 1ysd_A 1ysb_A 2o3k_A 1uaq_A Length = 161 Back     alignment and structure
>2b3j_A TRNA adenosine deaminase; mixed alpha-beta, protein-RNA complex, RNA stem-loop, hydrol complex; HET: P5P; 2.00A {Staphylococcus aureus subsp} SCOP: c.97.1.2 Length = 159 Back     alignment and structure
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A {Streptococcus pyogenes serotype M6} Length = 179 Back     alignment and structure
>1wwr_A TRNA adenosine deaminase TADA; homodimer, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.80A {Aquifex aeolicus} SCOP: c.97.1.2 Length = 171 Back     alignment and structure
>2a8n_A Cytidine and deoxycytidylate deaminase; RNA editing, RNA binding protein; 1.60A {Agrobacterium tumefaciens} SCOP: c.97.1.2 Length = 144 Back     alignment and structure
>3dh1_A TRNA-specific adenosine deaminase 2; zinc-binding protein, TRA tRNA processing, hydrolase, structural genomics, structural consortium, SGC; 2.80A {Homo sapiens} Length = 189 Back     alignment and structure
>2g84_A Cytidine and deoxycytidylate deaminase zinc-bindi; zinc-binding region, structural genomics, PSI, protein structure initiative; 1.40A {Nitrosomonas europaea} SCOP: c.97.1.2 Length = 197 Back     alignment and structure
>2hvw_A Deoxycytidylate deaminase; 3-layer (alpha-beta)-sandwich, protein-liand complex, hydrolase; HET: DCP DDN; 1.67A {Streptococcus mutans} PDB: 2hvv_A* Length = 184 Back     alignment and structure
>2w4l_A DCMP deaminse, deoxycytidylate deaminase; pyrimidine metabolism, nucleotide biosynthesis, zinc, hexamer, hydrolase, metal-binding, phosphoprotein; 2.10A {Homo sapiens} Length = 178 Back     alignment and structure
>1vq2_A DCMP deaminase, deoxycytidylate deaminase; hydrolase; HET: DDN; 2.20A {Enterobacteria phage T4} SCOP: c.97.1.2 Length = 193 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query427
2g6v_A402 Riboflavin biosynthesis protein RIBD; RIBD APO str 100.0
2b3z_A373 Riboflavin biosynthesis protein RIBD; alpha/beta/a 100.0
2hxv_A360 Diaminohydroxyphosphoribosylaminopyrimidine deami 100.0
2azn_A219 HTP reductase, putative 5-amino-6-(5-phosphoribosy 100.0
3dh1_A189 TRNA-specific adenosine deaminase 2; zinc-binding 100.0
2nx8_A179 TRNA-specific adenosine deaminase; TAD, hydrolase; 100.0
2b3j_A159 TRNA adenosine deaminase; mixed alpha-beta, protei 100.0
2p4g_A270 Hypothetical protein; pyrimidine reductase-like pr 100.0
1z3a_A168 TRNA-specific adenosine deaminase; tRNA adenosine 100.0
2g84_A197 Cytidine and deoxycytidylate deaminase zinc-bindi; 100.0
2a8n_A144 Cytidine and deoxycytidylate deaminase; RNA editin 99.98
1wwr_A171 TRNA adenosine deaminase TADA; homodimer, riken st 99.97
1wkq_A164 Guanine deaminase; domain SWAP, the cytidine deami 99.97
1p6o_A161 Cytosine deaminase; hydrolase, dimer, inhibitor bo 99.97
2w4l_A178 DCMP deaminse, deoxycytidylate deaminase; pyrimidi 99.97
1vq2_A193 DCMP deaminase, deoxycytidylate deaminase; hydrola 99.96
2hvw_A184 Deoxycytidylate deaminase; 3-layer (alpha-beta)-sa 99.96
3ky8_A197 Putative riboflavin biosynthesis protein; structur 99.94
2gd9_A189 Hypothetical protein YYAP; structural genomics, jo 99.94
3jtw_A178 Dihydrofolate reductase; YP_805003.1, structural G 99.92
2xw7_A178 Dihydrofolate reductase; oxidoreductase, NADPH; HE 99.91
3g8q_A278 Predicted RNA-binding protein, contains thump doma 99.9
1cz3_A168 Dihydrofolate reductase; dimer, hyperthermophIle, 99.89
2nyt_A190 Probable C->U-editing enzyme apobec-2; cytidine de 99.82
3kgy_A231 Bifunctional deaminase-reductase domain protein; p 99.75
1vdr_A162 DHFR, dihydrofolate reductase; oxidoreductase, hal 99.63
1zdr_A164 Dihydrofolate reductase; DHFR, NADP, oxidoreductas 99.59
3ix9_A190 Dihydrofolate reductase; central beta sheet surrou 99.53
1aoe_A192 DHFR, dihydrofolate reductase; oxidoreductase, ant 99.51
1kmv_A186 DHFR, dihydrofolate reductase; oxidoreductase, ant 99.49
3cse_A227 Dihydrofolate reductase; protein-ligand complex, o 99.44
2w3w_A167 Dihydrofolate reductase; nonclassical antifolates, 99.43
2w9h_A159 DHFR, dihydrofolate reductase; oxidoreductase, one 99.41
3dfr_A162 Dihydrofolate reductase; oxido-reductase; HET: NDP 99.34
3s9u_A165 Dihydrofolate reductase; oxidoreductase; HET: NAP 99.34
3tq8_A178 Dihydrofolate reductase; oxidoreductase-oxidoreduc 99.32
3nzb_X206 Dihydrofolate reductase; pneumocystius carinii DHF 99.32
3ia4_A162 Dihydrofolate reductase; NADPH, methotrexate, oxid 99.28
1df7_A159 DHFR, dihydrofolate reductase; structure-based inh 99.23
3dau_A159 Dihydrofolate reductase; oxidoreductase, pseudo-ro 99.18
1uwz_A136 Cytidine deaminase; CDD, tetramer, zinc binding, p 99.14
3hj3_A 521 Chain A, crystal structure of DHFR; TS, enzyme, cr 99.13
3nrr_A 515 Dihydrofolate reductase-thymidylate synthase; stru 99.11
1j3k_A280 Bifunctional dihydrofolate reductase-thymidylate s 99.09
2fr5_A146 Cytidine deaminase; tetrahydrouridine, protein-inh 99.03
2z3g_A130 Blasticidin-S deaminase; hydrolase, cytidine deami 98.97
2bl9_A238 Dihydrofolate reductase-thymidylate synthase; plam 98.9
3rg9_A240 Bifunctional dihydrofolate reductase-thymidylate; 98.78
1juv_A193 DHFR, dihydrofolate reductase; complexed with NADP 98.73
3b8f_A142 Putative blasticidin S deaminase; cytidine deamina 98.49
1r5t_A142 Cytidine deaminase; zinc dependent deaminase, RNA 98.24
3irm_A 521 Bifunctional dihydrofolate reductase-thymidylate; 98.23
3r2n_A138 Cytidine deaminase; structural genomics, seattle s 98.18
2d30_A141 Cytidine deaminase; purines, pyrimidines, nucleosi 98.14
3qg2_A 608 Bifunctional dihydrofolate reductase-thymidylate; 98.05
1ctt_A294 Cytidine deaminase; hydrolase; HET: DHZ; 2.20A {Es 97.75
3mpz_A150 Cytidine deaminase; ssgcid, structu genomics, seat 97.48
1ctt_A294 Cytidine deaminase; hydrolase; HET: DHZ; 2.20A {Es 97.25
3oj6_A158 Blasticidin-S deaminase; ssgcid, seattle structura 96.98
3dmo_A138 Cytidine deaminase; structural genomics, seattle s 96.6
4eg2_A298 Cytidine deaminase; UMP synthesis, Zn binding, hyd 95.95
3v4k_A203 DNA DC->DU-editing enzyme apobec-3G; antiviral def 94.39
4eg2_A298 Cytidine deaminase; UMP synthesis, Zn binding, hyd 92.63
3vow_A190 Probable DNA DC->DU-editing enzyme apobec-3C; anti 90.03
>2g6v_A Riboflavin biosynthesis protein RIBD; RIBD APO structure, structural genomics, structural proteomi europe, spine, hydrolase, oxidoreductase; 2.60A {Escherichia coli} PDB: 2obc_A* 2o7p_A* Back     alignment and structure
Probab=100.00  E-value=3.1e-79  Score=625.50  Aligned_cols=342  Identities=35%  Similarity=0.506  Sum_probs=298.6

Q ss_pred             hhHHHHHHHHHHHHHHccCCCCCCCcEEEEEEeCCeEEEEEecCCCCCCcHHHHHHHHHhhhcCCCEEEEcCCCCCCCCC
Q 014311           75 KDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGR  154 (427)
Q Consensus        75 ~~~~~~m~~a~~~A~~~~~~~~~~~~vGaviv~~g~ii~~g~n~~~~~~HAE~~ai~~~~~~~~~~tlY~t~ePC~~~g~  154 (427)
                      .+|++||++|+++|+++.+.++||++||||||+||+||++|+|...+.+|||++||++|++.++|||||||+|||+|+||
T Consensus        28 ~~d~~~m~~A~~~A~~~~~~~~~~~~vGaviv~~g~ii~~g~n~~~g~~HAE~~Ai~~a~~~~~g~tlyvt~ePC~h~G~  107 (402)
T 2g6v_A           28 GQDEYYMARALKLAQRGRFTTHPNPNVGCVIVKDGEIVGEGYHQRAGEPHAEVHALRMAGEKAKGATAYVTLEPCSHHGR  107 (402)
T ss_dssp             HHHHHHHHHHHHHHHTTTTTCTTSCCCEEEEEETTEEEEEEECCCTTSCCHHHHHHHHHGGGGGSSCEEESSCCC-----
T ss_pred             HHHHHHHHHHHHHHHhhCccCCCCCCEEEEEEECCEEEEEEeCCCCCccHHHHHHHHHhhHhcCCeEEEEeCCCcCCCCC
Confidence            47999999999999999988899999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHhcCccEEEEeecCCCCCCCchhHHHHhhCCcEEEEecccchhhccccceeeeeecCcceEEEEEeeccCce
Q 014311          155 TPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGH  234 (427)
Q Consensus       155 t~~C~~ai~~~gi~~vv~~~~d~~~~~~~~~~~~l~~~gi~V~~g~~~~e~~~l~~~f~~r~~~~rP~V~~k~A~SLDG~  234 (427)
                      ||||+++|+|+||+||||+..||++.+.|+|+++|+++||+|..|++++||.++++.|+++.+++||||++++|+|||||
T Consensus       108 tp~C~~ai~~agi~rVv~~~~~~~~~~~g~g~~~l~~~gi~v~~g~l~~e~~~l~~~f~~~~~~~rP~V~~k~A~SLDG~  187 (402)
T 2g6v_A          108 TPPCCDALIAAGVARVVASMQDPNPQVAGRGLYRLQQAGIDVSHGLMMSEAEQLNKGFLKRMRTGFPYIQLKLGASLDGR  187 (402)
T ss_dssp             --CCHHHHHHTTCSCEEESSCCCSCSSSTTHHHHHHHTTCCEEECTTTTHHHHHTHHHHHHHHSSSCEEEEEEEECTTCB
T ss_pred             chHHHHHHHHhCCCEEEEEecCCCccccchHHHHHHhCCcEEEeCCcchhhHHHhhhhhhccccccchheeeeeecCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCCCccccch----HHHHHhhccCEEEEc-cccccccCCCCCCCCC-------------CCCCeEEEEccCCCCCC
Q 014311          235 VLDQLGEGVAESGG----YYSQLLQEYDAIILS-ASSTKKYSIPASQEPD-------------ANQPFRIITVSNHASPI  296 (427)
Q Consensus       235 Ia~~~g~~~wi~~~----~~~~~r~~~DaiLvG-~T~~~d~p~l~~r~~~-------------~~~P~~vVvd~~~~l~~  296 (427)
                      ||.++|.+.|++++    +++++|+.+||||+| +|+..|+|.|++|.+.             .++|.+||+|+++++++
T Consensus       188 IA~~~G~s~Wit~~~~r~~~~~lra~~DAILvG~~T~~~d~P~Lt~r~~~~~~~~~~~~~~~~~~~P~rvVld~~~~lp~  267 (402)
T 2g6v_A          188 TAMASGESQWITSPQARRDVQLLRAQSHAILTSSATVLADDPALTVRWSELDEQTQALYPQQNLRQPIRIVIDSQNRVTP  267 (402)
T ss_dssp             BCC---CCSCSSCHHHHHHHHHHHHHCSEEEEEHHHHHHHCCCCCCCGGGCCGGGTSSCCGGGCCCCEEEEECTTCCCCT
T ss_pred             CccCCCCcCCcCCHHHHHHHHHHHHhCCEEEECHHHHhhcCcccccccccccccccccccccccCCCeEEEECCCCCCCh
Confidence            99999999999764    588899999999999 8999999999998652             57999999999999999


Q ss_pred             CCCccccCCCceEEEEecCCCCCccccccCCcEEEEeC----CCCHHHHHHHHHHCCCCeEEEEecCCcccHHHHHHHHH
Q 014311          297 RIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLH----QLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGI  372 (427)
Q Consensus       297 ~~~l~~~~~~~~~~v~t~~~~~~~~~l~~~~v~~i~~~----~~dl~~~l~~L~~~g~~~IlveGG~GGg~L~~l~~sfl  372 (427)
                      ..++|+.  ..|+||+++..  +...+ +.|++++.++    ++|+.+++++|+++|+++|||||   |   ++|+++|+
T Consensus       268 ~a~~~~~--~~~~iV~t~~~--~~~~l-~~gv~vi~~~~~~g~vdl~~~l~~L~~~g~~~vlVEG---G---~~L~~sfL  336 (402)
T 2g6v_A          268 VHRIVQQ--PGETWFARTQE--DSREW-PETVRTLLIPEHKGHLDLVVLMMQLGKQQINSIWVEA---G---PTLAGALL  336 (402)
T ss_dssp             TSGGGSS--SSCEEEEESSC--CCSCC-CTTEEEEECCEETTEECHHHHHHHHHHTTCCEEEECC---C---HHHHHHHH
T ss_pred             hhHhhcC--CCCEEEEECCc--chhhh-cCCCEEEEecCCCCCCCHHHHHHHHHhCCCCEEEEEE---h---HHHHHHHH
Confidence            9999864  56888888754  22334 6689998765    47999999999999999999994   5   46699999


Q ss_pred             HCCCccEEEEEEEeeEeCCCCCCCCcc--ccccccccCeeeeeeEEecCcEEEEEeC
Q 014311          373 EQNLLQKIVVEVLPVWNGSDGGNPHTL--LNSLGKRLILKNLQPKMSSQSIVLEGYL  427 (427)
Q Consensus       373 ~~gLvDEl~l~i~P~llG~~g~~l~~~--~~~~~~~~~L~l~~~~~~g~di~~~~Y~  427 (427)
                      ++|||||++|+++|+++|++|.+++.+  +..+.++.+|++++++.+++|+++++|.
T Consensus       337 ~agLVDEl~l~iaP~llG~~G~~lf~~~~~~~l~~~~~L~l~~~~~~g~dv~~~~y~  393 (402)
T 2g6v_A          337 QAGLVDELIVYIAPKLLGSDARGLCTLPGLEKLADAPQFKFKEIRHVGPDVCLHLVG  393 (402)
T ss_dssp             HHTCCCEEEEEECSCCCSSSSCBSCCCCC-------CCCEEEEEEEETTEEEEEEEC
T ss_pred             HCCCccEEEEEEccEEeCCCCcCCCCCccccccccccccEEeEEEEECCcEEEEEEE
Confidence            999999999999999999768887532  3344678899999999999999999984
>2b3z_A Riboflavin biosynthesis protein RIBD; alpha/beta/alpha, deaminase domain and reductase domain, hydrolase, oxidoreductase; 2.41A {Bacillus subtilis} SCOP: c.71.1.2 c.97.1.2 PDB: 2d5n_A* 3ex8_A* Back     alignment and structure
>2hxv_A Diaminohydroxyphosphoribosylaminopyrimidine deami amino-6-(5-phosphoribosylamino)uracil...; oxidoreductase, structural genomics; HET: NDP; 1.80A {Thermotoga maritima} SCOP: c.71.1.2 c.97.1.2 Back     alignment and structure
>2azn_A HTP reductase, putative 5-amino-6-(5-phosphoribosylamino)uracil; oxidoreductase; HET: MA5 NAP EPE; 2.70A {Methanocaldococcus jannaschii} SCOP: c.71.1.2 Back     alignment and structure
>3dh1_A TRNA-specific adenosine deaminase 2; zinc-binding protein, TRA tRNA processing, hydrolase, structural genomics, structural consortium, SGC; 2.80A {Homo sapiens} Back     alignment and structure
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A {Streptococcus pyogenes serotype M6} Back     alignment and structure
>2b3j_A TRNA adenosine deaminase; mixed alpha-beta, protein-RNA complex, RNA stem-loop, hydrol complex; HET: P5P; 2.00A {Staphylococcus aureus subsp} SCOP: c.97.1.2 Back     alignment and structure
>2p4g_A Hypothetical protein; pyrimidine reductase-like protein, structural genomics, JOIN for structural genomics, JCSG; 2.30A {Corynebacterium diphtheriae} Back     alignment and structure
>1z3a_A TRNA-specific adenosine deaminase; tRNA adenosine deaminase, dimer, zinc, metalloenzyme, structural genomics, PSI, protein structure initiative; 2.03A {Escherichia coli} SCOP: c.97.1.2 PDB: 3ocq_A Back     alignment and structure
>2g84_A Cytidine and deoxycytidylate deaminase zinc-bindi; zinc-binding region, structural genomics, PSI, protein structure initiative; 1.40A {Nitrosomonas europaea} SCOP: c.97.1.2 Back     alignment and structure
>2a8n_A Cytidine and deoxycytidylate deaminase; RNA editing, RNA binding protein; 1.60A {Agrobacterium tumefaciens} SCOP: c.97.1.2 Back     alignment and structure
>1wwr_A TRNA adenosine deaminase TADA; homodimer, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.80A {Aquifex aeolicus} SCOP: c.97.1.2 Back     alignment and structure
>1wkq_A Guanine deaminase; domain SWAP, the cytidine deaminase superfamily, substrate specificity, structural plasticity, hydrolase; 1.17A {Bacillus subtilis} SCOP: c.97.1.2 PDB: 1tiy_A Back     alignment and structure
>1p6o_A Cytosine deaminase; hydrolase, dimer, inhibitor bound; 1.14A {Saccharomyces cerevisiae} SCOP: c.97.1.2 PDB: 1ox7_A 1rb7_A 1ysd_A 1ysb_A 2o3k_A 1uaq_A Back     alignment and structure
>2w4l_A DCMP deaminse, deoxycytidylate deaminase; pyrimidine metabolism, nucleotide biosynthesis, zinc, hexamer, hydrolase, metal-binding, phosphoprotein; 2.10A {Homo sapiens} Back     alignment and structure
>1vq2_A DCMP deaminase, deoxycytidylate deaminase; hydrolase; HET: DDN; 2.20A {Enterobacteria phage T4} SCOP: c.97.1.2 Back     alignment and structure
>2hvw_A Deoxycytidylate deaminase; 3-layer (alpha-beta)-sandwich, protein-liand complex, hydrolase; HET: DCP DDN; 1.67A {Streptococcus mutans} PDB: 2hvv_A* Back     alignment and structure
>3ky8_A Putative riboflavin biosynthesis protein; structural genomic center for structural genomics, JCSG, protein structure INI PSI-2; HET: MSE UNL; 2.12A {Shewanella loihica} Back     alignment and structure
>2gd9_A Hypothetical protein YYAP; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, oxidoreductase; 2.30A {Bacillus subtilis} Back     alignment and structure
>3jtw_A Dihydrofolate reductase; YP_805003.1, structural GE joint center for structural genomics, JCSG, protein structu initiative; 1.90A {Pediococcus pentosaceus atcc 25745} Back     alignment and structure
>2xw7_A Dihydrofolate reductase; oxidoreductase, NADPH; HET: PG4 NDP; 2.00A {Mycobacterium smegmatis} Back     alignment and structure
>3g8q_A Predicted RNA-binding protein, contains thump domain; cytidine deaminase, ferredoxin-like domain; 2.40A {Methanopyrus kandleri} Back     alignment and structure
>1cz3_A Dihydrofolate reductase; dimer, hyperthermophIle, oxidoreductase; 2.10A {Thermotoga maritima} SCOP: c.71.1.1 PDB: 1d1g_A* Back     alignment and structure
>2nyt_A Probable C->U-editing enzyme apobec-2; cytidine deaminase, zinc-ION binding, hydrolase; 2.50A {Homo sapiens} PDB: 2rpz_A Back     alignment and structure
>3kgy_A Bifunctional deaminase-reductase domain protein; putative dihydrofolate reductase, structural genomics; HET: MSE NDP; 1.50A {Chloroflexus aurantiacus j-10-fl} Back     alignment and structure
>1vdr_A DHFR, dihydrofolate reductase; oxidoreductase, halophilic enzyme; 2.55A {Haloferax volcanii} SCOP: c.71.1.1 PDB: 2ith_A 2jyb_A Back     alignment and structure
>1zdr_A Dihydrofolate reductase; DHFR, NADP, oxidoreductase; 2.00A {Geobacillus stearothermophilus} Back     alignment and structure
>3ix9_A Dihydrofolate reductase; central beta sheet surrounded by 4 alpha helices, oxidoreductase; HET: NDP MTX; 1.95A {Streptococcus pneumoniae} Back     alignment and structure
>1aoe_A DHFR, dihydrofolate reductase; oxidoreductase, antifungal target; HET: NDP GW3; 1.60A {Candida albicans} SCOP: c.71.1.1 PDB: 1ai9_A* 1ia1_A* 1ia2_A* 1ia3_A* 1ia4_A* 1m78_A* 1m79_A* 1m7a_A* 3qlr_A* 3qls_A* 3qlw_A* Back     alignment and structure
>1kmv_A DHFR, dihydrofolate reductase; oxidoreductase, antiparasitic drugs, lipophilic antifolates; HET: LII NDP; 1.05A {Homo sapiens} SCOP: c.71.1.1 PDB: 1dhf_A* 1hfr_A* 1drf_A* 1kms_A* 1ohj_A* 1ohk_A* 1pd8_A* 1pd9_A* 1pdb_A 1s3u_A* 1s3v_A* 1s3w_A* 1u72_A* 1yho_A* 2c2s_A* 2c2t_A* 2dhf_A* 3ghw_A* 3ntz_A* 3nu0_A* ... Back     alignment and structure
>3cse_A Dihydrofolate reductase; protein-ligand complex, oxidoreductase; HET: NAP N22; 1.60A {Candida glabrata} PDB: 3eej_A* 3eek_A* 3eel_A* 3eem_A* 3qlx_A* 3qly_A* 3qlz_A* Back     alignment and structure
>2w3w_A Dihydrofolate reductase; nonclassical antifolates, one-carbon metabolism, lipophilic antifolates, NADP, oxidoreductase; HET: VG9 NDP; 1.60A {Mycobacterium avium} PDB: 2w3v_A* Back     alignment and structure
>2w9h_A DHFR, dihydrofolate reductase; oxidoreductase, one-carbon metabolism; HET: TOP; 1.48A {Staphylococcus aureus} PDB: 2w9g_A* 3sqy_X* 3srq_X* 3srr_X* 3srs_X* 3sru_X* 3srw_X* 3frd_X* 3fre_X* 3frf_X* 3fyv_X* 3fyw_X* 3sr5_X* 3frb_X* 3fra_X* 3fy8_X* 3fy9_X* 3fq0_A* 3f0b_X* 3f0s_X* ... Back     alignment and structure
>3dfr_A Dihydrofolate reductase; oxido-reductase; HET: NDP MTX; 1.70A {Lactobacillus casei} SCOP: c.71.1.1 PDB: 1ao8_A* 1bzf_A* 1dis_A* 1diu_A* 1lud_A* 2hm9_A* 2hqp_A* 2l28_A 2lf1_A* Back     alignment and structure
>3s9u_A Dihydrofolate reductase; oxidoreductase; HET: NAP 5DR; 1.90A {Bacillus anthracis} PDB: 3sa1_A* 3sa2_A* 3sai_A* 3e0b_A* 3jvx_A* 3jwm_A* 3jwk_A* 3jw5_A* 3jwf_A* 3jwc_A* 3jw3_A* 3dat_A* 2qk8_A* 3fl8_A* 3fl9_A* 2kgk_A* Back     alignment and structure
>3tq8_A Dihydrofolate reductase; oxidoreductase-oxidoreductase inhib complex; HET: NDP TOP; 1.90A {Coxiella burnetii} SCOP: c.71.1.0 PDB: 3tq9_A* 3tqa_A* 3tqb_A* Back     alignment and structure
>3nzb_X Dihydrofolate reductase; pneumocystius carinii DHFR inhibitor complexes, oxidoreducta oxidoreductase-oxidoreductase inhibitor complex; HET: D2N NAP; 1.45A {Pneumocystis carinii} SCOP: c.71.1.1 PDB: 1daj_A* 1cd2_A* 1e26_A* 1klk_A* 1ly3_A* 1ly4_A* 1s3y_A* 2cd2_A* 2fzh_A* 1dyr_A* 3cd2_A* 3nz6_X* 3nz9_X* 3nza_X* 2fzi_A* 3nzc_X* 3td8_A* 4cd2_A* 1vj3_A* Back     alignment and structure
>3ia4_A Dihydrofolate reductase; NADPH, methotrexate, oxidoreductase; HET: NDP MTX; 1.70A {Moritella profunda} SCOP: c.71.1.0 PDB: 3ia5_A 2zza_A* Back     alignment and structure
>1df7_A DHFR, dihydrofolate reductase; structure-based inhibitor design, folateanalogs, rossmann fold; HET: NDP MTX; 1.70A {Mycobacterium tuberculosis} SCOP: c.71.1.1 PDB: 1dg5_A* 1dg7_A* 1dg8_A* 2cig_A* Back     alignment and structure
>3dau_A Dihydrofolate reductase; oxidoreductase, pseudo-rossmann fold, adenine nucleotide BIN domain, antibiotic resistance, methotrexate resistance; HET: MTX NAP; 1.50A {Escherichia coli} SCOP: c.71.1.1 PDB: 1ddr_A* 1dds_A* 3k74_A 1ra9_A* 1dre_A* 1drh_A* 1dyi_A* 1dyh_A* 1jol_A* 1jom_A* 1ra1_A* 1dyj_A* 1ra3_A* 1ra8_A* 1ra2_A* 1rb2_A* 1rb3_A* 1rc4_A* 1rd7_A* 1re7_A* ... Back     alignment and structure
>1uwz_A Cytidine deaminase; CDD, tetramer, zinc binding, pyrimidine metabolism, salvage, hydrolase; HET: THU; 1.99A {Bacillus subtilis} SCOP: c.97.1.1 PDB: 1ux0_A* 1jtk_A* 1ux1_A* Back     alignment and structure
>3hj3_A Chain A, crystal structure of DHFR; TS, enzyme, crossover, non-active site, oxidoreductase; HET: UMP CB3 MTX NDP; 2.70A {Cryptosporidium hominis} PDB: 1qzf_A* 1sej_A* 3dl5_A* 3dl6_A* 2oip_A* Back     alignment and structure
>3nrr_A Dihydrofolate reductase-thymidylate synthase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, niaid, DHFR; HET: NAP D16 UMP; 1.80A {Babesia bovis} PDB: 3kjr_A* 3i3r_A* 3k2h_A* Back     alignment and structure
>1j3k_A Bifunctional dihydrofolate reductase-thymidylate synthase; oxidoreductase, transferase; HET: WRA NDP UMP; 2.10A {Plasmodium falciparum} SCOP: c.71.1.1 PDB: 3dg8_A* 1j3j_A* 1j3i_A* 3dga_A* Back     alignment and structure
>2fr5_A Cytidine deaminase; tetrahydrouridine, protein-inhibitor COM alternate conformation of Arg68, hydrolase; HET: TYU; 1.48A {Mus musculus} SCOP: c.97.1.1 PDB: 1zab_A* 2fr6_A* 1mq0_A* Back     alignment and structure
>2z3g_A Blasticidin-S deaminase; hydrolase, cytidine deaminase family, zinc, tetramer; HET: TRE; 1.50A {Aspergillus terreus} SCOP: c.97.1.1 PDB: 1wn6_A* 1wn5_A* 2z3h_A* 2z3j_A 2z3i_A* Back     alignment and structure
>2bl9_A Dihydrofolate reductase-thymidylate synthase; plamodium vivax, pyrimethamine, malaria, drug resistance, oxidoreductase; HET: NDP CP6; 1.9A {Plasmodium vivax} PDB: 2blb_A* 2blc_A* 2bla_A* Back     alignment and structure
>3rg9_A Bifunctional dihydrofolate reductase-thymidylate; oxidoreductase, oxidoreductase-oxidoreductase inhibitor complex; HET: NDP WRA; 2.00A {Trypanosoma brucei rhodesiense} PDB: 3qfx_A* Back     alignment and structure
>1juv_A DHFR, dihydrofolate reductase; complexed with NADPH, oxidoreductase; HET: NDP; 1.70A {Enterobacteria phage T4} SCOP: c.71.1.1 Back     alignment and structure
>3b8f_A Putative blasticidin S deaminase; cytidine deaminase, structural genomics, MCSG, protein structure initiative; 1.90A {Bacillus anthracis} Back     alignment and structure
>1r5t_A Cytidine deaminase; zinc dependent deaminase, RNA editing, apobec-1 related protein, hydrolase; 2.00A {Saccharomyces cerevisiae} SCOP: c.97.1.1 Back     alignment and structure
>3irm_A Bifunctional dihydrofolate reductase-thymidylate; DHFR-TS antifolate complex, methyltransfe multifunctional enzyme, NADP; HET: 1CY; 2.10A {Trypanosoma cruzi} PDB: 3inv_A* 3irn_A* 3iro_A* 2h2q_A* 3cl9_A* 3clb_A* 3hbb_A* 3kjs_A* Back     alignment and structure
>3r2n_A Cytidine deaminase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, tuberculosis; 2.30A {Mycobacterium leprae} SCOP: c.97.1.0 Back     alignment and structure
>2d30_A Cytidine deaminase; purines, pyrimidines, nucleosides, nucleotides, salvage of nucleosides and nucleotides, structural genomics; 2.40A {Bacillus anthracis} SCOP: c.97.1.1 Back     alignment and structure
>3qg2_A Bifunctional dihydrofolate reductase-thymidylate; pyrimethamine, antifolate resistance, oxidoreductase, transferase; HET: CP6 NDP UMP; 2.30A {Plasmodium falciparum} PDB: 3jsu_A* 4dp3_A* 4dph_A* 3qgt_A* 3um8_A* 4dpd_A* 3um5_A* 3um6_A* Back     alignment and structure
>1ctt_A Cytidine deaminase; hydrolase; HET: DHZ; 2.20A {Escherichia coli} SCOP: c.97.1.1 c.97.1.1 PDB: 1aln_A* 1af2_A* 1ctu_A* Back     alignment and structure
>3mpz_A Cytidine deaminase; ssgcid, structu genomics, seattle structural genomics center for infectious hydrolase; 1.70A {Mycobacterium smegmatis} PDB: 3ijf_X 4f3w_A Back     alignment and structure
>1ctt_A Cytidine deaminase; hydrolase; HET: DHZ; 2.20A {Escherichia coli} SCOP: c.97.1.1 c.97.1.1 PDB: 1aln_A* 1af2_A* 1ctu_A* Back     alignment and structure
>3oj6_A Blasticidin-S deaminase; ssgcid, seattle structural genomics for infectious disease, hydrolase; 1.70A {Coccidioides immitis} Back     alignment and structure
>3dmo_A Cytidine deaminase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, hydrolase; 1.60A {Burkholderia pseudomallei} Back     alignment and structure
>4eg2_A Cytidine deaminase; UMP synthesis, Zn binding, hydrolase; HET: URI; 2.20A {Vibrio cholerae} Back     alignment and structure
>3v4k_A DNA DC->DU-editing enzyme apobec-3G; antiviral defense, HOST-virus interaction, hydrola metal-binding, nucleus; HET: DNA; 1.38A {Homo sapiens} PDB: 3v4j_A* 3ir2_A* 2kem_A* 2jyw_A* 2kbo_A* 3e1u_A* 3iqs_A* Back     alignment and structure
>4eg2_A Cytidine deaminase; UMP synthesis, Zn binding, hydrolase; HET: URI; 2.20A {Vibrio cholerae} Back     alignment and structure
>3vow_A Probable DNA DC->DU-editing enzyme apobec-3C; antiviral deffense, HOST-virus interaction, metal- HIV-1 VIF, BET, single domain, sivagm, hydrolase; 2.15A {Homo sapiens} PDB: 3vm8_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 427
d2b3za2145 c.97.1.2 (A:1-145) Riboflavin biosynthesis protein 4e-36
d2hxva2147 c.97.1.2 (A:1-147) Riboflavin biosynthesis protein 2e-31
d1z3aa1156 c.97.1.2 (A:13-168) tRNA adenosine deaminase TadA 2e-24
d1wwra1151 c.97.1.2 (A:1-151) tRNA adenosine deaminase TadA { 5e-24
d1wkqa_158 c.97.1.2 (A:) Guanine deaminase GuaD {Bacillus sub 2e-23
d2b3ja1151 c.97.1.2 (A:1-151) tRNA adenosine deaminase TadA { 6e-21
d2g84a1189 c.97.1.2 (A:1-189) Putative deaminase NE0047 {Nitr 2e-19
d1vq2a_193 c.97.1.2 (A:) Deoxycytidylate deaminase {Bacteriop 1e-18
d1p6oa_156 c.97.1.2 (A:) Cytosine deaminase {Baker's yeast (S 1e-18
d2a8na1130 c.97.1.2 (A:2-131) Cytidine and deoxycytidylate de 4e-17
>d2b3za2 c.97.1.2 (A:1-145) Riboflavin biosynthesis protein RibD {Bacillus subtilis [TaxId: 1423]} Length = 145 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Cytidine deaminase-like
superfamily: Cytidine deaminase-like
family: Deoxycytidylate deaminase-like
domain: Riboflavin biosynthesis protein RibD
species: Bacillus subtilis [TaxId: 1423]

 Score =  127 bits (320), Expect = 4e-36
 Identities = 71/143 (49%), Positives = 101/143 (70%)

Query: 77  DGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGEL 136
           + +YM+  ++LA +  G T  NP+VG V+VKDG+IVG G H K G+ HAEV A+  AG  
Sbjct: 2   EEYYMKLALDLAKQGEGQTESNPLVGAVVVKDGQIVGMGAHLKYGEAHAEVHAIHMAGAH 61

Query: 137 AEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
           AEGA  YV+LEPC+HYG+TPPC E +I + +K+V V M DPNP+V  +G+  +++AGI+V
Sbjct: 62  AEGADIYVTLEPCSHYGKTPPCAELIINSGIKRVFVAMRDPNPLVAGRGISMMKEAGIEV 121

Query: 197 TVGVEDELCKRLNEAFIHRIVTG 219
             G+  +  +RLNE F+H + TG
Sbjct: 122 REGILADQAERLNEKFLHFMRTG 144
>d2hxva2 c.97.1.2 (A:1-147) Riboflavin biosynthesis protein RibD {Thermotoga maritima [TaxId: 2336]} Length = 147 Back     information, alignment and structure
>d1z3aa1 c.97.1.2 (A:13-168) tRNA adenosine deaminase TadA {Escherichia coli [TaxId: 562]} Length = 156 Back     information, alignment and structure
>d1wwra1 c.97.1.2 (A:1-151) tRNA adenosine deaminase TadA {Aquifex aeolicus [TaxId: 63363]} Length = 151 Back     information, alignment and structure
>d1wkqa_ c.97.1.2 (A:) Guanine deaminase GuaD {Bacillus subtilis [TaxId: 1423]} Length = 158 Back     information, alignment and structure
>d2b3ja1 c.97.1.2 (A:1-151) tRNA adenosine deaminase TadA {Staphylococcus aureus [TaxId: 1280]} Length = 151 Back     information, alignment and structure
>d2g84a1 c.97.1.2 (A:1-189) Putative deaminase NE0047 {Nitrosomonas europaea [TaxId: 915]} Length = 189 Back     information, alignment and structure
>d1vq2a_ c.97.1.2 (A:) Deoxycytidylate deaminase {Bacteriophage T4 [TaxId: 10665]} Length = 193 Back     information, alignment and structure
>d1p6oa_ c.97.1.2 (A:) Cytosine deaminase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 156 Back     information, alignment and structure
>d2a8na1 c.97.1.2 (A:2-131) Cytidine and deoxycytidylate deaminase CodA {Agrobacterium tumefaciens [TaxId: 358]} Length = 130 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query427
d2hxva2147 Riboflavin biosynthesis protein RibD {Thermotoga m 100.0
d2b3za2145 Riboflavin biosynthesis protein RibD {Bacillus sub 100.0
d2b3za1214 Riboflavin biosynthesis protein RibD {Bacillus sub 100.0
d2azna1219 HTP reductase {Methanococcus jannaschii [TaxId: 21 100.0
d2hxva1198 Riboflavin biosynthesis protein RibD {Thermotoga m 100.0
d1z3aa1156 tRNA adenosine deaminase TadA {Escherichia coli [T 100.0
d1wwra1151 tRNA adenosine deaminase TadA {Aquifex aeolicus [T 100.0
d2b3ja1151 tRNA adenosine deaminase TadA {Staphylococcus aure 100.0
d1p6oa_156 Cytosine deaminase {Baker's yeast (Saccharomyces c 99.97
d1wkqa_158 Guanine deaminase GuaD {Bacillus subtilis [TaxId: 99.97
d2a8na1130 Cytidine and deoxycytidylate deaminase CodA {Agrob 99.96
d2g84a1189 Putative deaminase NE0047 {Nitrosomonas europaea [ 99.96
d1vq2a_193 Deoxycytidylate deaminase {Bacteriophage T4 [TaxId 99.95
d1d1ga_164 Dihydrofolate reductase, prokaryotic type {Thermot 99.85
d1vdra_157 Dihydrofolate reductase, prokaryotic type {Halofer 98.51
d1seja1178 Bifunctional enzyme dihydrofolate reductase-thymid 98.27
d2fzia1206 Dihydrofolate reductases, eukaryotic type {Fungus 98.14
d3dfra_162 Dihydrofolate reductase, prokaryotic type {Lactoba 98.11
d1alna2144 Two-domain cytidine deaminase {Escherichia coli [T 97.83
d1kmva_186 Dihydrofolate reductases, eukaryotic type {Human ( 97.66
d1j3ka_231 Bifunctional enzyme dihydrofolate reductase-thymid 97.6
d1ra9a_159 Dihydrofolate reductase, prokaryotic type {Escheri 97.53
d1aoea_192 Dihydrofolate reductases, eukaryotic type {Yeast ( 97.47
d1df7a_159 Dihydrofolate reductase, prokaryotic type {Mycobac 97.28
d2fr5a1136 mono-domain cytidine deaminase {Mouse (Mus musculu 97.04
d2d30a1124 mono-domain cytidine deaminase {Bacillus anthracis 96.96
d1r5ta_141 mono-domain cytidine deaminase {Baker's yeast (Sac 96.88
d1alna1150 Two-domain cytidine deaminase {Escherichia coli [T 96.63
d1uwza_130 mono-domain cytidine deaminase {Bacillus subtilis 96.41
d2z3ga1123 Blasticidin-S deaminase {Aspergillus terreus [TaxI 96.07
d1juva_193 Dihydrofolate reductase, prokaryotic type {Bacteri 95.96
>d2hxva2 c.97.1.2 (A:1-147) Riboflavin biosynthesis protein RibD {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cytidine deaminase-like
superfamily: Cytidine deaminase-like
family: Deoxycytidylate deaminase-like
domain: Riboflavin biosynthesis protein RibD
species: Thermotoga maritima [TaxId: 2336]

Probab=100.00  E-value=3.1e-41  Score=296.98  Aligned_cols=144  Identities=48%  Similarity=0.854  Sum_probs=135.6

Q ss_pred             hHHHHHHHHHHHHHHccCCCCCCCcEEEEEEeCCeEEEEEecCCCCCCcHHHHHHHHHhh---hcCCCEEEEcCCCCCCC
Q 014311           76 DDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGE---LAEGATAYVSLEPCNHY  152 (427)
Q Consensus        76 ~~~~~m~~a~~~A~~~~~~~~~~~~vGaviv~~g~ii~~g~n~~~~~~HAE~~ai~~~~~---~~~~~tlY~t~ePC~~~  152 (427)
                      .+++||++|+++|+++.+.+.||+|||||||+||+||+.|+|...+.+|||++||++|.+   ++.|++||||+|||+|+
T Consensus         1 ~he~~M~~Al~~A~~~~~~~~~~~pVGaViV~~g~IIa~g~n~~~~~~hae~~ai~~a~~~~~~l~~~~lYvTlEPC~~~   80 (147)
T d2hxva2           1 MYETFMKRAIELAKKGLGRVNPNPPVGAVVVKDGRIIAEGFHPYFGGPHAERMAIESARKKGEDLRGATLIVTLEPCDHH   80 (147)
T ss_dssp             HHHHHHHHHHHHHHTTTTTSTTSCCCEEEEEETTEEEEEEECCSTTSCCHHHHHHHHHHHTTCCCTTCEEEEEECCCCSC
T ss_pred             ChHHHHHHHHHHHHhccccCCCCCcEEEEEEECCeEEEeeceeccCCchHHHHHHHHHHHhCCCCCCCEEeecccccccc
Confidence            378999999999999988888999999999999999999999999999999999999854   47899999999999999


Q ss_pred             CCChhhHHHHHhcCccEEEEeecCCCCCCCchhHHHHhhCCcEEEEecccchhhccccceeeeeecCc
Q 014311          153 GRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGK  220 (427)
Q Consensus       153 g~t~~C~~ai~~~gi~~vv~~~~d~~~~~~~~~~~~l~~~gi~V~~g~~~~e~~~l~~~f~~r~~~~r  220 (427)
                      |+||||++||+|+||+|||||..||++ ..++|++.|+++||+|+.|++++||.+|++.||++.+++|
T Consensus        81 ~~~p~C~~ai~~agi~rVv~g~~dp~~-~~~~~~~~l~~~~i~V~~gvl~~e~~~l~~~F~~~~~~kr  147 (147)
T d2hxva2          81 GKTPPCTDLIIESGIKTVVIGTRDPNP-VSGNGVEKFRNHGIEVIEGVLEEEVKKLCEFFITYVTKKR  147 (147)
T ss_dssp             SSSCCHHHHHHHHTCCEEEEEECCCCG-GGCCHHHHHHTTTCEEEECTTHHHHHHHTHHHHHHHHHSS
T ss_pred             CCChhhhHHHHhcCcceeeeecccccc-ccchhhhhhhcCCCEEEeCcCHHHHHHHHHHHHHHHHhCc
Confidence            999999999999999999999999998 4678999999999999999999999999999999887765
>d2b3za2 c.97.1.2 (A:1-145) Riboflavin biosynthesis protein RibD {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2b3za1 c.71.1.2 (A:146-359) Riboflavin biosynthesis protein RibD {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2azna1 c.71.1.2 (A:6-224) HTP reductase {Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d2hxva1 c.71.1.2 (A:148-345) Riboflavin biosynthesis protein RibD {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1z3aa1 c.97.1.2 (A:13-168) tRNA adenosine deaminase TadA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1wwra1 c.97.1.2 (A:1-151) tRNA adenosine deaminase TadA {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d2b3ja1 c.97.1.2 (A:1-151) tRNA adenosine deaminase TadA {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1p6oa_ c.97.1.2 (A:) Cytosine deaminase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1wkqa_ c.97.1.2 (A:) Guanine deaminase GuaD {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2a8na1 c.97.1.2 (A:2-131) Cytidine and deoxycytidylate deaminase CodA {Agrobacterium tumefaciens [TaxId: 358]} Back     information, alignment and structure
>d2g84a1 c.97.1.2 (A:1-189) Putative deaminase NE0047 {Nitrosomonas europaea [TaxId: 915]} Back     information, alignment and structure
>d1vq2a_ c.97.1.2 (A:) Deoxycytidylate deaminase {Bacteriophage T4 [TaxId: 10665]} Back     information, alignment and structure
>d1d1ga_ c.71.1.1 (A:) Dihydrofolate reductase, prokaryotic type {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1vdra_ c.71.1.1 (A:) Dihydrofolate reductase, prokaryotic type {Haloferax volcanii [TaxId: 2246]} Back     information, alignment and structure
>d1seja1 c.71.1.1 (A:3-180) Bifunctional enzyme dihydrofolate reductase-thymidylate synthase, DFR domain {Cryptosporidium hominis [TaxId: 237895]} Back     information, alignment and structure
>d2fzia1 c.71.1.1 (A:1-206) Dihydrofolate reductases, eukaryotic type {Fungus (Pneumocystis carinii) [TaxId: 4754]} Back     information, alignment and structure
>d3dfra_ c.71.1.1 (A:) Dihydrofolate reductase, prokaryotic type {Lactobacillus casei [TaxId: 1582]} Back     information, alignment and structure
>d1alna2 c.97.1.1 (A:151-294) Two-domain cytidine deaminase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1kmva_ c.71.1.1 (A:) Dihydrofolate reductases, eukaryotic type {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1j3ka_ c.71.1.1 (A:) Bifunctional enzyme dihydrofolate reductase-thymidylate synthase, DFR domain {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]} Back     information, alignment and structure
>d1ra9a_ c.71.1.1 (A:) Dihydrofolate reductase, prokaryotic type {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1aoea_ c.71.1.1 (A:) Dihydrofolate reductases, eukaryotic type {Yeast (Candida albicans) [TaxId: 5476]} Back     information, alignment and structure
>d1df7a_ c.71.1.1 (A:) Dihydrofolate reductase, prokaryotic type {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d2fr5a1 c.97.1.1 (A:11-146) mono-domain cytidine deaminase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2d30a1 c.97.1.1 (A:1-124) mono-domain cytidine deaminase {Bacillus anthracis [TaxId: 1392]} Back     information, alignment and structure
>d1r5ta_ c.97.1.1 (A:) mono-domain cytidine deaminase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1alna1 c.97.1.1 (A:1-150) Two-domain cytidine deaminase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1uwza_ c.97.1.1 (A:) mono-domain cytidine deaminase {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2z3ga1 c.97.1.1 (A:2-124) Blasticidin-S deaminase {Aspergillus terreus [TaxId: 33178]} Back     information, alignment and structure
>d1juva_ c.71.1.1 (A:) Dihydrofolate reductase, prokaryotic type {Bacteriophage T4 [TaxId: 10665]} Back     information, alignment and structure